RNA Biology: Publications

ARTICLES

• C. Joo, M. Fareh, V. N. Kim (2013) "Bringing single-molecule spectroscopy to macromolecular protein complexes" Trends in Biochemical Sciences, 38(1):30-37.

• S. Cho, I. Jang, Y. Jun, S. Yoon, M. Ko, Y. Kwon, I. Choi, H. Chang, D. Ryu, B. Lee, V. N. Kim, W. Kim and S. Lee (2012) "miRGator v3.0: a microRNA portal for deep sequencing, expression profiling and mRNA targeting" Nucleic Acids Research, 41 (D1): D252-D257.
• J. Cho, H. Chang, S. C. Kwon, B. Kim, Y. Kim, J. Choe, M. Ha, Y. K. Kim and V. N. Kim (2012) "LIN28A is a suppressor of ER-associated translation in embryonic stem cells" Cell, 151: 765-777.
• I. Heo, M. Ha, J. Lim, M.-J. Yoon, J.-E. Park, S. C. Kwon, H. Chang and V. N. Kim (2012) "Mono-uridylation of pre-microRNA as a key step in the biogenesis of group II let-7 microRNAs" Cell, 151: 521-532.
• J. Kim, M. Choi, J. R. Kim, H. Jin, V. N. Kim and K. H. Cho (2012) "The co-regulation mechanism of transcription factors in the human gene regulatory network" Nucleic Acids Research, 40(18):8849-8861.
• H. Jin, V. N. Kim and S. Hyun (2012) "Conserved microRNA miR-8 controls body size in response to steroid signaling in Drosophila" Genes & Development, 26:1427-1432.
• Y.-K. Kim, J. Yeo, B. Kim, M. Ha and V. N. Kim (2012) "Short Structured RNAs with Low GC Content Are Selectively Lost during Extraction from a Small Number of Cells" Molecular Cell, 46:893-895.
• Y. Kim and V. N. Kim (2012) "MicroRNA Factory: RISC Assembly from Precursor MicroRNAs" Molecular Cell, 46:384-386.

• S. Kim, S. Lee, J. Shin, Y. Kim, I. Evnouchidou, D. Kim, Y.-K. Kim, Y.-E. Kim, J.-H. Ahn, S. R. Riddell, E. Stratikos, V. N. Kim and K. Ahn (2011) "Human cytomegalovirus microRNA miR-US4-1 inhibits CD8⁺ T cell responses by targeting the aminopeptidase ERAP1" Nature Immunology, 12:984-991.
• J.-E. Park, I. Heo, Y. Tian, D. K. Simanshu, H. Chang, D. Jee, D. J. Patel and V. N. Kim (2011) "Dicer recognizes the 5' end of RNA for efficient and accurate processing" Nature, 475:201-205.
• K.-H. Yeom, I. Heo, J. Lee, S. Hohng, V. N. Kim and C. Joo (2011) "Single-molecule approach to immunoprecipitated protein complexes: insights into miRNA uridylation" EMBO Reports, 12:690-969.

• Y.-K. Kim, I. Heo and V. N. Kim (2010) "Modifications of Small RNAs and Their Associated Proteins" Cell, 143:703-709.

• S. Hyun, J. H. Lee, H. Jin, J. Nam, B. Namkoong, Gina Lee, J. Chung and V. N. Kim (2009) "Conserved microRNA miR-8/miR-200 and its target USH/FOG2 control growth by regulating PI3K" Cell, 139:1096-1108.
• I. Heo and V. N. Kim (2009) "Regulating the Regulators: Posttranslational Modifications of RNA Silencing Factors" Cell, 139:28-31.
• H. Jin, M. R. Suh, J. Han, K.-H. Yeom, Y. Lee, I. Heo, M. Ha, S. Hyun and V. N. Kim (2009) "Human UPF1 Participates in Small RNA-Induced mRNA Downregulation" Molecular and Cellular Biology, 20(21):5789-99.
• I. Heo, C. Joo, Y.-K. Kim, M. Ha, M.-J. Yoon, J. Cho, K.-H. Yeom, J. Han and V. N. Kim (2009) "TUT4 in Concert with Lin28 Suppresses MicroRNA Biogenesis through Pre-MicroRNA Uridylation" Cell, 138:696-708.
• Y.-K. Kim, J. Yu, T. S. Han, S. Y. Park, B. Namkoong, D. H. Kim, K. Hur, M. W. Yoo, H. J. Lee, H. K. Yang, and V. N. Kim (2009) "Functional links between clustered microRNAs: suppression of cell-cycle inhibitors by microRNA clusters in gastric cancer" Nucleic Acids Research, 37:1672-1681.
• V. N. Kim, J. Han and M. C. Siomi (2009) "Biogenesis of small RNAs in animals" Nature Reviews Molecular Cell Biology, 10:126-139.
• J. Han, J. S. Pederson, S. C. Kwon, C. D. Belair, Y.-K. Kim, K. H. Yeom, W. Y. Yang, D. Haussler, R. Blelloch, and V. N. Kim (2009) "Posttranscriptional crossregulation between Drosha and DGCR8" Cell, 136:75-84.
• S. Y. Park, J. H. Lee, M. Ha, J. W. Nam and V. N. Kim (2009) "miR-29 miRNAs activate p53 by targeting p85a and CDC42" Nature Structural and Molecular Biology, 16(1):23-9.

• I. Heo, C. Joo, J. Cho, M. Ha, J. Han and V. N. Kim (2008) "Lin28 mediates the terminal uridylation of let-7 precursor microRNA" Molecular Cell, 32:276-284.
• V. N. Kim (2008) "Cell cycle micromanagement in embryonic stem cells" Nature Genetics, 40(12):1391-2.
• V. N. Kim (2008) "Sorting out small RNAs" Cell, 133:25-26.

• H. H. Lee, Y. S. Kim, K. H. Kim, I. Heo, S. K. Kim, O. Kim, H. K. Kim, J. Y. Yoon, H. S. Kim, D. J. Kim, H. J. Yoon, S. J. Kim, B. G. Lee, H. K. Song, V. N. Kim, C. M. Park and S. W. Suh (2007) "Structural and functional insights into Dom34, a key component of No-Go mRNA decay" Molecular Cell, 27(6):938-50.
• S. Y. Sohn, W. J. Bae, J. J. Kim, K. H. Yeom, V. N. Kim and Y. Cho (2007) "Crystal structure of human DGCR8 core" Nature Structural and Molecular Biology, 14(9):847-53.
• Y.-K. Kim and V. N. Kim (2007) "Processing of intronic microRNAs" EMBO Journal, 26(3):775-83.
• J. T. Lee, S. S. Yu, V. N. Kim and S. Kim (2007) "Control of Splicing Efficiency by the Mouse Histone H2a Element in a Murine Leukemia Virus-based Retroviral Vector" Molecular Therapy, 15(1):167-72.

• V. N. Kim (2006) "Small RNAs just got bigger: Piwi-interacting RNAs (piRNAs) in mammalian testes" Genes & Development, 20(15):1993-7.
• K. H. Yeom, Y. Lee, J. Han, M. R. Suh and V. N. Kim (2006) "Characterization of DGCR8/Pasha, the essential cofactor for Drosha in primary miRNA processing" Nucleic Acids Research, 34(16):4622-9.
• V. N. Kim and J. W. Nam (2006) "Genomics of microRNA" Trends in Genetics, 22(3):165-73.
• S. J. Yim, Y. S. Lee, D. J. Chang, J. H. Han, H. Kim, H. Park, H. Jun, V. N. Kim and B. K. Kaang (2006) "Regulation of ApC/EBP mRNA by the Aplysia AU-rich element-binding protein, ApELAV, and its effects on 5-hydroxytryptamine-induced long-term facilitation" Journal of Neurochemistry, 98(2):420-9.
• J. Han, Y. Lee, K. H. Yeom, J. W. Nam, I. Heo, J. K. Rhee, S. Y. Sohn, Y. Cho, B. T. Zhang, and V. N. Kim (2006) "Molecular basis for the recognition of primary microRNAs by the Drosha-DGCR8 complex" Cell, 125(5):887-901.
• Y. Lee, I. Hur, S. Y. Park, Y.-K. Kim, M. R. Suh and V. N. Kim (2006) "The role of PACT in the RNA silencing pathway" EMBO Journal, 25(3):522-32.

• J. W. Nam, K. R. Shin, J. Han, Y. Lee, and V. N. Kim, B. T. Zhang (2005) "Human microRNA prediction through a probabilistic co-learning model of sequence and structure" Nucleic Acids Research, 33(11):3570-81.
• K. Lee, K. Jeon, J. M. Kim, V. N. Kim, D. H. Choi, S. U. Kim and S. Kim (2005) "Downregulation of GFAP, TSP-1, and p53 in human glioblastoma cell line, U373MG, by IE1 protein from human cytomegalovirus" Glia, 51(1):1-12.
• V. N. Kim (2005) "MicroRNA biogenesis: coordinated cropping and dicing" Nature Reviews Molecular Cell Biology, 6(5):376-85.
• V. N. Kim (2005) "Small RNAs: classification, biogenesis, and function" Molecules and Cells, 19(1):1-15.

• J. Han, Y. Lee, K. H. Yeom, Y.-K. Kim, H. Jin and V. N. Kim (2004) "The Drosha-DGCR8 complex in primary microRNA processing" Genes & Development, 18(24):3016-27.
• Y. Lee, M. Kim, J. Han, K. H. Yeom, S. Lee, S. H. Baek, and V. N. Kim (2004) "MicroRNA genes are transcribed by RNA polymerase II" EMBO Journal, 23(20):4051-60.
• M. R. Suh, Y. Lee, J. Y. Kim, S. K. Kim, S. H. Moon, J. Y. Lee, K. Y. Cha, H. M. Chung, H. S. Yoon, S. Y. Moon, V. N. Kim and K. S. Kim (2004) "Human embryonic stem cells express a unique set of microRNAs" Developmental Biology, 270(2):488-98.
• V. N. Kim (2004) "MicroRNA precursors in motion: exportin-5 mediates their nuclear export" Trends in Cell Biology, 14(4):156-9.

• Y. Lee, C. Ahn, J. Han, H. Choi, J. Kim, J. Yim, J. Lee, P. Provost, O. Radmark, S. Kim, V. N. Kim (2003) "The nuclear RNase III Drosha initiates microRNA processing" Nature, 425(6956):415-9.

• Y. Lee, K. Jeon, J. T. Lee, S. Kim and V. N. Kim (2002) "MicroRNA maturation: stepwise processing and subcellular localization" EMBO Journal, 21(17):4663-70.

BOOK CHAPTERS

• Y. Lee and V. N. Kim (2007) "In vitro and in vivo assays for the activity of drosha complex" Methods in Enzymology 427:87-106 doi:10.1016/S0076-6879(07) 27005-3

• Y. Lee, J. Han, K. H. Yeom, H. Jin and V. N. Kim (2006) "Drosha in primary microRNA processing" Cold Spring Harbor Symposia on Quantative Biology (2006) 71:51-7 doi:10.1101/sqb.2006.71.041

• Y. Lee and V. N. Kim (2005) "Preparation and analysis of Drosha" Methods in Molecular Biology 309:17-28

PATENTS

• The inhibition method of microRNA

• The recombinant primary microRNA molecule for RNA interference